X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 298.0
Details 41-46% (w/v) polypropylenglycol P400, 0.05-0.2M (NH4)2SO4, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 120.32 α = 90
b = 120.32 β = 90
c = 107.01 γ = 90
Symmetry
Space Group P 43

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE HORIZONTAL FOCUSING MIRROR 2010-11-28
Diffraction Radiation
Monochromator Protocol
LN2-Cooled Double Crystal Si(111) Monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.90000 SPring-8 BL44XU

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.74 30 99.9 0.143 -- -- 7.4 155725 155608 0.0 1.0 31.6
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.74 1.8 100.0 0.488 -- 5.5 7.4 15513

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.74 29.3 -- -- -- 147427 7787 99.79 -- 0.15444 0.15289 0.18408 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.741 1.835 22504 1147 21357 0.166 0.225 -- 99.79
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic with TLS
Mean Isotropic B 21.982
Anisotropic B[1][1] 0.32
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.32
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.64
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 11.689
r_mcbond_it 1.324
r_bond_refined_d 0.007
r_scangle_it 5.017
r_dihedral_angle_4_deg 12.723
r_chiral_restr 0.098
r_mcangle_it 2.215
r_dihedral_angle_1_deg 6.901
r_angle_refined_deg 1.38
r_rigid_bond_restr 1.71
r_gen_planes_refined 0.006
r_scbond_it 3.368
r_dihedral_angle_2_deg 33.945
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8132
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 778

Software

Software
Software Name Purpose
HKL-2000 data collection
MOLREP phasing
REFMAC refinement version: 5.5.0109
HKL-2000 data reduction
HKL-2000 data scaling